Sequence
atgc intronic sequence ATGC exonic sequence...gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 5
------gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
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tttcaacttacacaaatgattctat-tacagtagtattgtatcactgcatgctgatttttgttttcacatg--ccccctgaattgacagttttcattctt---cagGTTACTTTTGTTGAAGCTCTTGACCAGCTAATGCCTGGTTTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTCCTTATCAACCCTCGGAATATAGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaat-ttactcaattcaaaattgg------gcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| | || | || | || | | || || || | | | || |||| || ||| |||| | |||||| ||||||||||||| | |||||| | || || || |||||||||||||||||||||||| || || || ||||| || ||||| ||||| ||||| |||||||
-------aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------------------------------------------------gctggatgaattctagaatgctccttagacatct-gttgcctgatgaatatgattgtt--ctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
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gtagtacttctcttctgatatatttttttttatcctttctcaattgtattttgttcatgagaagaactgacaatagttttccaatttttcttttatgacgtttgaaagttttttatattatctcattgtttgaaaagttagaaacctaatttgtgcagaagagatatagttggtaataatggtactctgcagGTTACTTTTATTGAAGCTTTAGACCAGCTCATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTTCTCATAAATCCCCGGAATATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 5
-gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaa-aattgg------gcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| | | || | ||| | |||| || | | ||| | || | | | || || | || || ||| || |||||| ||||||||||||| | |||||| | || || || |||||||||||||||||||||||| || || || ||||| || ||||| ||||| ||||| |||||||
agtccaagaagttaaaaaatattta------atct-ttattttaaaaattt-atgatccctaatttatccctgaaaagataagcaaagtaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 5
-gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaa-----ttgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
|| | ||| ||||| | ||| | | || | || || || | |||| | | | | || | || ||| |||||| |||||| | ||||| || || ||||| |||||||||||||||||||| || || |||| ||||| ||| | || ||||| | || |||||||
ttttgtgtaaatagtagaaaa----taagattttaaggtaccaatctgt-tggtt-tttcgatttaaattgtagttactgatcgaaaacggaaaccttttgtgcagGTAACTTTTATAGAAGCACTGGATCAGCTAATGCCTGGATTTGATCCTGAGATCAGTAAGCTAGCTCAGAGGGTTTTGATAAATCCAAGAAAGATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 5
--gctggatgaattctagaatgctccttagacatctgt-tgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| | || | | || | | | | || | || ||| | ||||| | | || || || | ||| ||||| |||||| ||||||||||||| ||||| |||||||||||||||||||| |||| || || ||||| |||||||| || ||||| |||||||||||||
tagttattgtcatctttgttctcttttctcataatggaacaacttacacttagaatttcatt---ttaatgtaaatcaagttgaccataatgatattccacagGTAACTTTTATTGAAGCTCTTGATCAGCTTATGCCTGGATTTGATCCTGAGATTGGGAAGTTGGCCCAAAGAGTTCTAATAAATCCACGGAAAATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgt-tgcctgat-gaatatga---ttgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
|| | || | | | |||| |||| | | ||||| |||| || || || | |||| || | || || |||| ||||||||| |||||||||||| | || ||||| |||||||| ||||||||||| |||| ||||| || | | | ||||| || |||||||| |||||||| |
-ctccacttttttttggtt--ctcttaataatctatataactgattaaatacagaatttttttatagccgagtcacc--aagctgaccacagcattattgtgcagGTTACATTTGTTGAAGCTTTAGATCAGCTTATGCCTGGCTTTGATCCTGAGATTGGGAAATTGGCTCGGCGGGTTCTAATTAATCCTCGAAAAATTGATT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ16882 (Selaginella moellendorffii), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| || ||| | | | | || | ||| ||| | || | |||||| |||||||| |||||||| || || |||||||| || |||||||||||||| | || | || ||||| | || ||||||||||| |||||||| |
----------------------------------------------gtttgcgagtttttcttctttcctttt---tctacagaatacgcgat-gtgcagGTGACTTTTGTGGAAGCTCTGGATCAACTGATGCCAGGCTTTGATCCTGAAATCGGGAAGCTTGCTCAGAGGCTGCTGATCAATCCTCGAAAAATTGATT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| || | | || ||| || | || ||| | || | |||||| ||||||||||||||||| || || |||||||| || |||||||||||||| | || | || ||||| | || ||||| ||||| |||||||| |
--------------------------------------------------gtttagtttttcttctttccttt--ttctatagaatacgcgat-gtgcagGTGACTTTTGTTGAAGCTCTGGATCAACTGATGCCAGGCTTTGATCCTGAAATCGGGAAGCTTGCTCAGAGGCTCCTGATCAACCCTCGAAAAATTGATTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|211514676|gb|FL210540.1|FL210540EST: GGTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
genomic: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
EST:
gi|211056151|gb|FL241561.1|FL241561EST: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
genomic: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
EST:
gi|67016819|gb|CO445568.1|CO445568EST: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
genomic: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
EST:
gi|6536537|gb|AW224850.1|AW224850EST: GGTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
genomic: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
EST:
gi|31354606|gb|CD438963.1|CD438963EST: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
genomic: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
EST:
gi|6626525|gb|AW258057.1|AW258057EST: GGTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAG G-TACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
genomic: GTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
EST:
gi|211517024|gb|FL210545.1|FL210545EST: GTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTTGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGA
genomic: TTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTT-GGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGA
EST:
gi|32932110|gb|CF036922.1|CF036922EST: ACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
genomic: ACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAA
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
133TGCACTGAAACTTGAGTCAGTTCCAGACTGGATAGCTATTGTTGGAAGTGGTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
Block sizes:
45 (upstream exon),
45 (downstream exon)
Score:
112TGCACTGAAACTTGAGTCAGTTCCAGACTGGATAGCTATTGTTGGAAGTGGTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
79TGCACTGAAACTTGAGTCAGTTCCAGACTGGATAGCTATTGTTGGAAGTGGTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
Block sizes:
49 (upstream exon),
45 (downstream exon)
Score:
214TGCACTGAAACTTGAGTCAGTTCCAGACTGGATAGCTATTGTTGGAAGTGGTTACATTGGACTTGAGTTCAGTGATGTATACACAGCTCTTGGAAGTGAGgtacattaga ... aattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
agttaat putative branch site (score: 214)
aattcaaaatt TA-rich tract